2020
DOI: 10.1534/g3.120.401327
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Reconstruction of the Largest Pedigree Network for Pear Cultivars and Evaluation of the Genetic Diversity of the USDA-ARS NationalPyrusCollection

Abstract: The USDA-ARS National Clonal Germplasm Repository (NCGR) in Corvallis, Oregon, maintains one of the world's largest and most diverse living Pyrus collection. A thorough genetic characterization of this germplasm will provide relevant information to optimize the conservation strategy of pear biodiversity, support the use of this germplasm in breeding, and increase our knowledge of Pyrus taxonomy, evolution, and domestication. In the last two decades simple sequence repeat (SSR) markers have been used at the NCG… Show more

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Cited by 22 publications
(18 citation statements)
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“…The different parameters, such as IBS and IBD, and specific thresholds (e.g., 0.97, 0.977, or 0.98), have been established previously to classify two individuals as identical using NGS ( Micheletti et al, 2015 ; Vanderzande et al, 2019 ; Montanari et al, 2020 ). Here, the used IBS threshold of 0.99, based on the group of known sports of ‘Springcrest’ ( Micheletti et al, 2015 ), has clearly helped to detect a large number of synonymies and homonymies, therefore, avoiding genetic errors and redundancies in the downstream analysis.…”
Section: Discussionmentioning
confidence: 99%
“…The different parameters, such as IBS and IBD, and specific thresholds (e.g., 0.97, 0.977, or 0.98), have been established previously to classify two individuals as identical using NGS ( Micheletti et al, 2015 ; Vanderzande et al, 2019 ; Montanari et al, 2020 ). Here, the used IBS threshold of 0.99, based on the group of known sports of ‘Springcrest’ ( Micheletti et al, 2015 ), has clearly helped to detect a large number of synonymies and homonymies, therefore, avoiding genetic errors and redundancies in the downstream analysis.…”
Section: Discussionmentioning
confidence: 99%
“…However, ‘Spadona’ pedigree is unknown. SPD is the parental line of ‘Coscia’ (Montanari et al., 2020), which is susceptible to fire blight (Bell, 2019). To the best of our knowledge no QTL study was done using ‘Coscia’ or 'Spadona' as the parental line.…”
Section: Discussionmentioning
confidence: 99%
“…In a third study of 1890 diploid Pyrus spp. samples investigated with the 70K SNP Axiom ® array, a major dichotomy was again found between P. communis on the one hand and the Asian pear species on the other hand, and with several subgroups within each major group [ 50 ].…”
Section: Genetic Diversitymentioning
confidence: 99%
“…Data obtained with the Axiom ® Pear 70K array were used to reconstruct a pedigree network for a total of 1890 diploid samples in the USDA-ARS Pyrus collection [ 50 ]. Five F1 populations were used to identify erroneous SNPs based on Mendelian inheritance and then aid in the pedigree reconstruction of the Pyrus accessions.…”
Section: Genetic Diversitymentioning
confidence: 99%